Cryo-electron microscopy methodology: current aspects and future directions

R Danev, H Yanagisawa, M Kikkawa - Trends in biochemical sciences, 2019 - cell.com
Cryo-electron microscopy (cryo-EM) has emerged as a powerful structure determination
technique. Its most prolific branch is single particle analysis (SPA), a method being used in a …

Protein cage assembly across multiple length scales

WM Aumiller, M Uchida, T Douglas - Chemical Society Reviews, 2018 - pubs.rsc.org
Within the materials science community, proteins with cage-like architectures are being
developed as versatile nanoscale platforms for use in protein nanotechnology. Much effort …

New tools for automated high-resolution cryo-EM structure determination in RELION-3

J Zivanov, T Nakane, BO Forsberg, D Kimanius… - elife, 2018 - elifesciences.org
Here, we describe the third major release of RELION. CPU-based vector acceleration has
been added in addition to GPU support, which provides flexibility in use of resources and …

[PDF][PDF] Real-space refinement in PHENIX for cryo-EM and crystallography

PV Afonine, BK Poon, RJ Read… - … Section D: Structural …, 2018 - journals.iucr.org
This article describes the implementation of real-space refinement in the phenix.
real_space_refine program from the PHENIX suite. The use of a simplified refinement target …

Cryo-EM structures of human m6A writer complexes

S Su, S Li, T Deng, M Gao, Y Yin, B Wu, C Peng, J Liu… - Cell Research, 2022 - nature.com
Abstract N 6-methyladenosine (m6A) is the most abundant ribonucleotide modification
among eukaryotic messenger RNAs. The m6A “writer” consists of the catalytic subunit m6A …

[PDF][PDF] New tools for the analysis and validation of cryo-EM maps and atomic models

PV Afonine, BP Klaholz, NW Moriarty… - … Section D: Structural …, 2018 - journals.iucr.org
Recent advances in the field of electron cryomicroscopy (cryo-EM) have resulted in a rapidly
increasing number of atomic models of biomacromolecules that have been solved using this …

Measurement of atom resolvability in cryo-EM maps with Q-scores

G Pintilie, K Zhang, Z Su, S Li, MF Schmid, W Chiu - Nature methods, 2020 - nature.com
Cryogenic electron microscopy (cryo-EM) maps are now at the point where resolvability of
individual atoms can be achieved. However, resolvability is not necessarily uniform …

Cryo-EM structures of complex I from mouse heart mitochondria in two biochemically defined states

ANA Agip, JN Blaza, HR Bridges, C Viscomi… - Nature structural & …, 2018 - nature.com
Complex I (NADH: ubiquinone oxidoreductase) uses the reducing potential of NADH to drive
protons across the energy-transducing inner membrane and power oxidative …

Cryo-EM model validation recommendations based on outcomes of the 2019 EMDataResource challenge

CL Lawson, A Kryshtafovych, PD Adams, PV Afonine… - Nature …, 2021 - nature.com
This paper describes outcomes of the 2019 Cryo-EM Model Challenge. The goals were to
(1) assess the quality of models that can be produced from cryogenic electron microscopy …

Analysis of global and site-specific radiation damage in cryo-EM

J Hattne, D Shi, C Glynn, CT Zee, M Gallagher-Jones… - Structure, 2018 - cell.com
Micro-crystal electron diffraction (MicroED) combines the efficiency of electron scattering
with diffraction to allow structure determination from nano-sized crystalline samples in …